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Alexei Finkelstein

Research Profile

Physiology

Protein Folding

Concepts & Ideas

Occupations

Chemicals & Drugs

Co-author Network

Publications

TOP 3
Sergiy O Garbuzynskiy; Dmitry Ivankov; Natalya S Bogatyreva; Alexei V Finkelstein
Golden triangle for folding rates of globular proteins.
Dmitry Ivankov; Alexei V Finkelstein
Protein folding as flow across a network of folding-unfolding pathways. 2. The "in-water" case.
Dmitry Ivankov; Alexei V Finkelstein
Protein folding as flow across a network of folding-unfolding pathways. 1. The mid-transition case.

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All Publications

2013: Sergiy O Garbuzynskiy; Dmitry Ivankov; Natalya S Bogatyreva; Alexei V Finkelstein
Golden triangle for folding rates of globular proteins.
Proceedings of the National Academy of Sciences of the United States of America 2013;110(1):147-50.
2010: Dmitry Ivankov; Alexei V Finkelstein
Protein folding as flow across a network of folding-unfolding pathways. 2. The "in-water" case.
The journal of physical chemistry. B 2010;114(23):7930-4.
2010: Dmitry Ivankov; Alexei V Finkelstein
Protein folding as flow across a network of folding-unfolding pathways. 1. The mid-transition case.
The journal of physical chemistry. B 2010;114(23):7920-9.
2009: Ekaterina N Samatova; Natalia S Katina; Vitaly Balobanov; Bogdan S Melnik; Dmitry A Dolgikh; Valentina E Bychkova; Alexei V Finkelstein
How strong are side chain interactions in the folding intermediate?
Protein science : a publication of the Protein Society 2009;18(10):2152-9.
2008: Alexei V Finkelstein; Michail Yu Lobanov; Nikita V Dovidchenko; Natalya S Bogatyreva
Many-atom van der Waals interactions lead to direction-sensitive interactions of covalent bonds.
Journal of bioinformatics and computational biology 2008;6(4):693-707.
2007: Alexei V Finkelstein; Dmitry Ivankov; Sergiy O Garbuzynskiy; Oxana V Galzitskaya
Understanding the folding rates and folding nuclei of globular proteins.
Current protein & peptide science 2007;8(6):521-36.
2007: Alexei V Finkelstein
Average and extreme multi-atom Van der Waals interactions: strong coupling of multi-atom Van der Waals interactions with covalent bonding.
Chemistry Central journal 2007;1():21.
2006: Natalya S Bogatyreva; Alexei V Finkelstein; Oxana V Galzitskaya
Trend of amino acid composition of proteins of different taxa.
Journal of bioinformatics and computational biology 2006;4(2):597-608.
2005: Ekaterina N Baryshnikova; Bogdan S Melnik; Alexei V Finkelstein; Gennady V Semisotnov; Valentina E Bychkova
Three-state protein folding: experimental determination of free-energy profile.
Protein science : a publication of the Protein Society 2005;14(10):2658-67.
2005: Sergiy O Garbuzynskiy; Bogdan S Melnik; Michail Yu Lobanov; Alexei V Finkelstein; Oxana V Galzitskaya
Comparison of X-ray and NMR structures: is there a systematic difference in residue contacts between X-ray- and NMR-resolved protein structures?
Proteins 2005;60(1):139-47.
2004: Dmitry Ivankov; Alexei V Finkelstein
Prediction of protein folding rates from the amino acid sequence-predicted secondary structure.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(24):8942-4.
2004: Sergiy O Garbuzynskiy; Alexei V Finkelstein; Oxana V Galzitskaya
Outlining folding nuclei in globular proteins.
Journal of molecular biology 2004;336(2):509-25.
2003: Dmitry Ivankov; Sergiy O Garbuzynskiy; Eric Alm; Kevin W Plaxco; David Baker; Alexei V Finkelstein
Contact order revisited: influence of protein size on the folding rate.
Protein science : a publication of the Protein Society 2003;12(9):2057-62.
2003: Oxana V Galzitskaya; Sergiy O Garbuzynskiy; Dmitry Ivankov; Alexei V Finkelstein
Chain length is the main determinant of the folding rate for proteins with three-state folding kinetics.
Proteins 2003;51(2):162-6.
2002: Alexei V Finkelstein
Cunning simplicity of a hierarchical folding.
Journal of biomolecular structure & dynamics 2002;20(3):311-3.
2002: Oxana V Galzitskaya; Junichi Higo; Alexei V Finkelstein
Alpha-helix and beta-hairpin Folding from experiment, analytical theory and molecular dynamics simulations.
Current protein & peptide science 2002;3(2):191-200.
2001: Dmitry Ivankov; Alexei V Finkelstein
Theoretical study of a landscape of protein folding-unfolding pathways. Folding rates at midtransition.
Biochemistry 2001;40(33):9957-61.
2001: Natalya S Bogatyreva; Alexei V Finkelstein
Cunning simplicity of protein folding landscapes.
Protein engineering 2001;14(8):521-3.
2001: Oxana V Galzitskaya; Dmitry Ivankov; Alexei V Finkelstein
Folding nuclei in proteins.
FEBS letters 2001;489(2-3):113-8.
2000: DS Rykunov; Michail Yu Lobanov; Alexei V Finkelstein
Search for the most stable folds of protein chains: III. Improvement in fold recognition by averaging over homologous sequences and 3D structures.
Proteins 2000;40(3):494-501.
2000: BA Reva; Alexei V Finkelstein; Jeffrey Skolnick
Derivation and testing residue-residue mean-force potentials for use in protein structure recognition.
Methods in molecular biology (Clifton, N.J.) 2000;143():155-74.
2000: Oxana V Galzitskaya; A V Skoogarev; Dmitry Ivankov; Alexei V Finkelstein
Folding nuclei in 3D protein structures.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 2000;():131-42.
1999: Oxana V Galzitskaya; Alexei V Finkelstein
A theoretical search for folding/unfolding nuclei in three-dimensional protein structures.
Proceedings of the National Academy of Sciences of the United States of America 1999;96(20):11299-304.
1999: BA Reva; Jeffrey Skolnick; Alexei V Finkelstein
Averaging interaction energies over homologs improves protein fold recognition in gapless threading.
Proteins 1999;35(3):353-9.
1998: BA Reva; DS Rykunov; Alexei V Finkelstein; Jeffrey Skolnick
Optimization of protein structure on lattices using a self-consistent field approach.
Journal of computational biology : a journal of computational molecular cell biology 1998;5(3):531-8.
1998: Alexei V Finkelstein
How homologs can help to predict protein folds even though they cannot be predicted for individual sequences.
Journal of computational biology : a journal of computational molecular cell biology 1998;5(3):369-76.
1998: BA Reva; Alexei V Finkelstein; Jeffrey Skolnick
What is the probability of a chance prediction of a protein structure with an rmsd of 6 A?
Folding & design 1998;3(2):141-7.
1998: Oxana V Galzitskaya; Alexei V Finkelstein
Folding rate dependence on the chain length of RNA-like heteropolymers.
Folding & design 1998;3(2):69-78.
1997: BA Reva; Alexei V Finkelstein; Michel F Sanner; Arthur J Olson; Jeffrey Skolnick
Recognition of protein structure on coarse lattices with residue-residue energy functions.
Protein engineering 1997;10(10):1123-30.
1997: BA Reva; Alexei V Finkelstein; Michel F Sanner; Arthur J Olson
Residue-residue mean-force potentials for protein structure recognition.
Protein engineering 1997;10(8):865-76.
1997: Alexei V Finkelstein
Can protein unfolding simulate protein folding?
Protein engineering 1997;10(8):843-5.
1997: Alexei V Finkelstein
Protein structure: what is it possible to predict now?
Current opinion in structural biology 1997;7(1):60-71.
1997: BA Reva; Alexei V Finkelstein; Michel F Sanner; Arthur J Olson
Accurate mean-force pairwise-residue potentials for discrimination of protein folds.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 1997;():373-84.
1997: Alexei V Finkelstein
Rate of protein folding near the point of thermodynamic equilibrium between the coil and the most stable chain fold.
Folding & design 1997;2(2):115-21.
1996: BA Reva; Alexei V Finkelstein; DS Rykunov; Arthur J Olson
Building self-avoiding lattice models of proteins using a self-consistent field optimization.
Proteins 1996;26(1):1-8.
1996: BA Reva; Alexei V Finkelstein; Michel F Sanner; Arthur J Olson
Adjusting potential energy functions for lattice models of chain molecules.
Proteins 1996;25(3):379-88.
1996: BA Reva; Alexei V Finkelstein
Search for the most stable folds of protein chains: II. Computation of stable architectures of beta-proteins using a self-consistent molecular field theory.
Protein engineering 1996;9(5):399-411.
1996: Alexei V Finkelstein; BA Reva
Search for the most stable folds of protein chains: I. Application of a self-consistent molecular field theory to a problem of protein three-dimensional structure prediction.
Protein engineering 1996;9(5):387-97.
1995: Alexei V Finkelstein; A M Gutin; A Y Badretdinov
Perfect temperature for protein structure prediction and folding.
Proteins 1995;23(2):151-62.
1995: Alexei V Finkelstein; A M Gutin
Why do protein architectures have Boltzmann-like statistics?
Proteins 1995;23(2):142-50.
1995: Oxana V Galzitskaya; Alexei V Finkelstein
Folding of chains with random and edited sequences: similarities and differences.
Protein engineering 1995;8(9):883-92.
1995: DS Rykunov; BA Reva; Alexei V Finkelstein
Accurate general method for lattice approximation of three-dimensional structure of a chain molecule.
Proteins 1995;22(2):100-9.
1995: BA Reva; DS Rykunov; Arthur J Olson; Alexei V Finkelstein
Constructing lattice models of protein chains with side groups.
Journal of computational biology : a journal of computational molecular cell biology 1995;2(4):527-35.
1995: Alexei V Finkelstein; A M Gutin
Boltzmann-like statistics of protein architectures. Origins and consequences.
Sub-cellular biochemistry 1995;24():1-26.
1994: Violetta Chemeris; Dmitry A Dolgikh; A N Fedorov; Alexei V Finkelstein; Mikhail P Kirpichnikov; Vladimir Uversky; OB Ptitsyn
A new approach to artificial and modified proteins: theory-based design, synthesis in a cell-free system and fast testing of structural properties by radiolabels.
Protein engineering 1994;7(8):1041-52.
1993: Kunihiro Kuwajima; Gennady V Semisotnov; Alexei V Finkelstein; Shintaro Sugai; OB Ptitsyn
Secondary structure of globular proteins at the early and the final stages in protein folding.
FEBS letters 1993;334(3):265-8.
1993: Alexei V Finkelstein; A M Gutun
Why are the same protein folds used to perform different functions?
FEBS letters 1993;325(1-2):23-8.
1993: Alexei V Finkelstein; H Nakamura
Weak points of antiparallel beta-sheets. How are they filled up in globular proteins?
Protein engineering 1993;6(4):367-72.
1993: Alexei V Finkelstein; Mikhail A Roytberg
Computation of biopolymers: a general approach to different problems.
Bio Systems 1993;30(1-3):1-19.
1992: BA Reva; Alexei V Finkelstein
A new approach to the design of a sequence with the highest affinity for a molecular surface.
Protein engineering 1992;5(7):625-8.
1992: Alexei V Finkelstein; BA Reva
Search for the stable state of a short chain in a molecular field.
Protein engineering 1992;5(7):617-24.
1992: A N Fedorov; Dmitry A Dolgikh; Violetta Chemeris; B K Chernov; Alexei V Finkelstein; A A Schulga; Mikhail P Kirpichnikov; OB Ptitsyn
De novo design, synthesis and study of albebetin, a polypeptide with a predetermined three-dimensional structure. Probing the structure at the nanogram level.
Journal of molecular biology 1992;225(4):927-31.
1991: Alexei V Finkelstein; BA Reva
A search for the most stable folds of protein chains.
Nature 1991;351(6326):497-9.
1991: Alexei V Finkelstein
Rate of beta-structure formation in polypeptides.
Proteins 1991;9(1):23-7.
1991: Alexei V Finkelstein; A Y Badretdinov; O B Ptitsyn
Physical reasons for secondary structure stability: alpha-helices in short peptides.
Proteins 1991;10(4):287-99.
1989: OB Ptitsyn; Alexei V Finkelstein
Prediction of protein secondary structure based on physical theory. Histones.
Protein engineering 1989;2(6):443-7.
1988: Alexey G Murzin; Alexei V Finkelstein
General architecture of the alpha-helical globule.
Journal of molecular biology 1988;204(3):749-69.
1987: Alexei V Finkelstein; O B Ptitsyn
Why do globular proteins fit the limited set of folding patterns?
Progress in biophysics and molecular biology 1987;50(3):171-90.
1985: OB Ptitsyn; Alexei V Finkelstein; Alexey G Murzin
Structural model for interferons.
FEBS letters 1985;186(2):143-8.
1983: O B Ptitsyn; Alexei V Finkelstein
Theory of protein secondary structure and algorithm of its prediction.
Biopolymers 1983;22(1):15-25.
1982: O B Ptitsyn; Alexei V Finkelstein; Mikhail P Kirpichnikov; K G Skryabin
cI and lexA repressors consist of three cro-like domains.
FEBS letters 1982;147(1):11-5.
1980: O B Ptitsyn; Alexei V Finkelstein
Similarities of protein topologies: evolutionary divergence, functional convergence or principles of folding?
Quarterly reviews of biophysics 1980;13(3):339-86.